Variant report

Variant	rs10896586
Chromosome Location	chr11:56984103-56984104
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10501364	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10896578	1.00[CEU][hapmap];0.80[CHB][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11228949	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11228951	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11602335	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11605468	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11606597	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12223141	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1815860	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1893677	0.84[EUR][1000 genomes]
rs1943482	0.84[EUR][1000 genomes]
rs2156456	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2282623	0.86[CEU][hapmap]
rs542855	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56074283	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56229060	0.84[EUR][1000 genomes]
rs57944700	0.83[EUR][1000 genomes]
rs61888863	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61888865	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61888866	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7124474	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs746886	0.86[CEU][hapmap];0.95[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv482317	chr11:56857026-57028631	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs10896586	OR9I1	cis	cerebellum	SCAN
rs10896586	OR8H1	cis	parietal	SCAN
rs10896586	MS4A13	cis	cerebellum	SCAN
rs10896586	OR9Q1	cis	parietal	SCAN
rs10896586	OR10AG1	cis	parietal	SCAN
rs10896586	OR5W2	cis	parietal	SCAN
rs10896586	OR5J2	cis	cerebellum	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:56979000-56984400	Weak transcription	Spleen	Spleen
2	chr11:56981600-56986000	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr11:56981800-56986200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr11:56982000-56984600	Weak transcription	Lung	lung
5	chr11:56982000-56984600	Weak transcription	Right Ventricle	heart
6	chr11:56982000-56986200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr11:56982000-56986600	Weak transcription	Fetal Heart	heart
8	chr11:56982000-56989200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr11:56982200-56984400	Weak transcription	HUVEC	blood vessel
10	chr11:56982200-56984600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr11:56982200-56986200	Weak transcription	Right Atrium	heart
12	chr11:56982200-56986400	Weak transcription	Brain Anterior Caudate	brain
13	chr11:56982200-56986800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr11:56982400-56987000	Weak transcription	Placenta	Placenta
15	chr11:56982400-56988800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr11:56982600-56986400	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr11:56982600-56986400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:56982600-56986400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr11:56982600-56986400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr11:56982600-56986400	Weak transcription	Fetal Muscle Leg	muscle
21	chr11:56982600-56986600	Weak transcription	Fetal Stomach	stomach
22	chr11:56982600-56986800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr11:56982600-56986800	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr11:56982600-56989600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr11:56982600-56991000	Weak transcription	Osteobl	bone
26	chr11:56982600-56991800	Weak transcription	NHDF-Ad	bronchial
27	chr11:56983000-56984400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:56983000-56989600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr11:56983400-56984800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr11:56983600-56984600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr11:56983600-56985000	Enhancers	Adipose Nuclei	Adipose
32	chr11:56983800-56987200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr11:56984000-56984200	Enhancers	Psoas Muscle	Psoas
34	chr11:56984000-56984200	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr11:56984000-56984200	Enhancers	HSMMtube	muscle

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